rsmD:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

YhhF

Synonyms

predicted methyltransferase[1], B3465[2][1], YhhF[2][1], RsmD[3][1] , ECK3449, JW3430, yhhF, b3465

Product description

predicted methyltransferase[2]; 16S rRNA m2G966 methyltransferase[3]

16S rRNA m(2)G966 methyltransferase, SAM-dependent[4]

EC number (for enzymes)


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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0003676

nucleic acid binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002052

F

Seeded from EcoCyc (v14.0)

complete

GO:0008990

rRNA (guanine-N2-)-methyltransferase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.1.1.52

F

Seeded from EcoCyc (v14.0)

complete

GO:0070475

rRNA base methylation

PMID:17189261[5]

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc (v14.0)

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

ompW

PMID:16606699[6]

Experiment(s):EBI-1145973

Protein

lldR

PMID:16606699[6]

Experiment(s):EBI-1145973

Protein

rplB

PMID:16606699[6]

Experiment(s):EBI-1145973

Protein

tufA

PMID:15690043[7]

Experiment(s):EBI-883806

Protein

dnaK

PMID:15690043[7]

Experiment(s):EBI-890983

Protein

tufB

PMID:19402753[8]

MALDI(Z-score):24.184033

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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MKKPNHSGSG QIRIIGGQWR GRKLPVPDSP GLRPTTDRVR ETLFNWLAPV IVDAQCLDCF
AGSGALGLEA LSRYAAGATL IEMDRAVSQQ LIKNLATLKA GNARVVNSNA MSFLAQKGTP
HNIVFVDPPF RRGLLEETIN LLEDNGWLAD EALIYVESEV ENGLPTVPAN WSLHREKVAG
QVAYRLYQRE AQGESDAD
Length

198

Mol. Wt

21.677 kDa

pI

6.3 (calculated)

Extinction coefficient

27,960 - 28,210 (calc based on 4 Y, 4 W, and 2 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Domain

12..188

PF03602 Conserved hypothetical protein 95

PMID:19920124[9]

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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=rsmD taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16131337

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947977

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011321

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0ADX9

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10343

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10343

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947977

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000337

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0339

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 1.3 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ Lesnyak, DV et al. (2007) Methyltransferase that modifies guanine 966 of the 16 S rRNA: functional identification and tertiary structure. J. Biol. Chem. 282 5880-7 PubMed
  6. ↑ 6.0 6.1 6.2 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ 7.0 7.1 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  8. ↑ Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  9. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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